Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 1 of 410
Found at i:12 original size:7 final size:7
Alignment explanation
Indices: 1--3324 Score: 4710
Period size: 7 Copynumber: 472.9 Consensus size: 7
1 AAACCCT
1 AAACCCT
8 AAACCCT
1 AAACCCT
15 AAACCCT
1 AAACCCT
22 AAACCCT
1 AAACCCT
29 AAA-CCT
1 AAACCCT
35 AAACCCT
1 AAACCCT
42 AAACCCT
1 AAACCCT
49 AAACCCT
1 AAACCCT
56 AAACCCT
1 AAACCCT
63 AAAACCCT
1 -AAACCCT
71 AAACCCT
1 AAACCCT
78 -AACCCT
1 AAACCCT
84 AAACCCT
1 AAACCCT
91 AAACCCT
1 AAACCCT
98 AAAACCCT
1 -AAACCCT
106 AAACCCT
1 AAACCCT
113 AAACCCT
1 AAACCCT
120 AAACCCT
1 AAACCCT
127 AAACCCT
1 AAACCCT
134 AAACCCT
1 AAACCCT
141 AAAACCCT
1 -AAACCCT
149 AAACCCT
1 AAACCCT
156 -AACCCT
1 AAACCCT
162 AAACCCT
1 AAACCCT
169 AAACCCT
1 AAACCCT
176 AAACCCT
1 AAACCCT
*
183 AAAACCT
1 AAACCCT
190 AAACCCT
1 AAACCCT
197 AAACCCT
1 AAACCCT
204 AAACCCT
1 AAACCCT
211 AAACCCT
1 AAACCCT
218 AAACCCT
1 AAACCCT
225 AAACCCT
1 AAACCCT
232 AAAACCCT
1 -AAACCCT
240 AAAACCCT
1 -AAACCCT
248 AAACCCT
1 AAACCCT
255 AAA-CCT
1 AAACCCT
261 AAACCCT
1 AAACCCT
268 AAACCCT
1 AAACCCT
275 AAAACCCT
1 -AAACCCT
283 AAACCCT
1 AAACCCT
290 AAACCCT
1 AAACCCT
297 AAACCCT
1 AAACCCT
304 AAACCCT
1 AAACCCT
311 --A-CCT
1 AAACCCT
315 AAACCCT
1 AAACCCT
322 AAAACCCT
1 -AAACCCT
330 AAACCCT
1 AAACCCT
337 AAACCCT
1 AAACCCT
344 -AA-CCT
1 AAACCCT
349 AAACCCT
1 AAACCCT
356 AAACCC-
1 AAACCCT
*
362 CAACCCT
1 AAACCCT
369 AAACCCT
1 AAACCCT
376 AAACCCT
1 AAACCCT
383 -AACCCT
1 AAACCCT
389 AAACCCT
1 AAACCCT
396 AAACCCT
1 AAACCCT
403 AAACCCT
1 AAACCCT
410 AAACCCT
1 AAACCCT
417 AAACCCT
1 AAACCCT
424 -AACCC-
1 AAACCCT
429 AAACCCT
1 AAACCCT
436 AAACCCT
1 AAACCCT
443 AAACCCT
1 AAACCCT
450 AAAACCCT
1 -AAACCCT
458 AAACCCT
1 AAACCCT
465 AAACCCT
1 AAACCCT
472 AAA-CCT
1 AAACCCT
478 AAACCCT
1 AAACCCT
485 -AACCCT
1 AAACCCT
491 AAACCCT
1 AAACCCT
498 -AACCCT
1 AAACCCT
504 AAACCCT
1 AAACCCT
511 AAACCCT
1 AAACCCT
518 AAACCCT
1 AAACCCT
525 AAACCCT
1 AAACCCT
532 AAACCCT
1 AAACCCT
539 AAACCCT
1 AAACCCT
546 AAACCCT
1 AAACCCT
553 AAACCCT
1 AAACCCT
560 AAACCCT
1 AAACCCT
567 AAACCCT
1 AAACCCT
574 AAACCCT
1 AAACCCT
581 AAA-CCT
1 AAACCCT
587 AAAACCCT
1 -AAACCCT
595 AAACCCT
1 AAACCCT
602 AAACCCT
1 AAACCCT
609 AAACCCT
1 AAACCCT
616 AAACCCT
1 AAACCCT
623 -AA-CCT
1 AAACCCT
628 AAAACCCT
1 -AAACCCT
636 AAACCCT
1 AAACCCT
643 AAACCCT
1 AAACCCT
650 AAACCCT
1 AAACCCT
657 AAACCCT
1 AAACCCT
664 AAACCC-
1 AAACCCT
670 AAACCCT
1 AAACCCT
677 AAACCCT
1 AAACCCT
684 AAAAACCCT
1 --AAACCCT
693 AAACCCT
1 AAACCCT
700 AAACCCT
1 AAACCCT
707 AAACCCT
1 AAACCCT
714 AAACCCT
1 AAACCCT
721 AAACCCT
1 AAACCCT
728 AAACCCT
1 AAACCCT
735 AAACCCT
1 AAACCCT
742 AAACCCT
1 AAACCCT
749 AAACCCT
1 AAACCCT
756 AAACCCT
1 AAACCCT
763 AAACCCT
1 AAACCCT
770 AAACCCT
1 AAACCCT
777 AAACCCT
1 AAACCCT
784 AAACCCT
1 AAACCCT
791 AAA-CCT
1 AAACCCT
797 AAACCC-
1 AAACCCT
803 -AA-CCT
1 AAACCCT
808 AAA-CCT
1 AAACCCT
814 AAACCCT
1 AAACCCT
821 AAACCCT
1 AAACCCT
828 AAACCCT
1 AAACCCT
835 AAACCCT
1 AAACCCT
842 AAACCCT
1 AAACCCT
849 AAA-CCT
1 AAACCCT
855 AAACCCT
1 AAACCCT
862 AAACCCT
1 AAACCCT
869 AAACCCT
1 AAACCCT
876 AAACCCT
1 AAACCCT
883 AAACCCT
1 AAACCCT
890 AAACCCT
1 AAACCCT
897 AAACCCT
1 AAACCCT
904 AAACCCT
1 AAACCCT
911 AAACCCT
1 AAACCCT
918 AAACCCT
1 AAACCCT
925 AAACCCT
1 AAACCCT
932 AAACCCT
1 AAACCCT
939 AAACCCT
1 AAACCCT
946 AAACCCT
1 AAACCCT
953 AAACCCT
1 AAACCCT
960 AAACCCT
1 AAACCCT
967 AAAACCCT
1 -AAACCCT
975 AAACCCT
1 AAACCCT
982 AAACCCT
1 AAACCCT
989 AAACCCT
1 AAACCCT
996 AAACCCT
1 AAACCCT
1003 AAACCCT
1 AAACCCT
1010 -AACCCT
1 AAACCCT
1016 AAACCCT
1 AAACCCT
1023 AAACCCT
1 AAACCCT
1030 AAACCCT
1 AAACCCT
1037 AAACCCT
1 AAACCCT
1044 AAACCCT
1 AAACCCT
1051 AAACCCT
1 AAACCCT
1058 AAACCCT
1 AAACCCT
1065 AAACCCT
1 AAACCCT
1072 AAACCCT
1 AAACCCT
1079 AAACCCT
1 AAACCCT
1086 AAA-CCT
1 AAACCCT
1092 AAACCCT
1 AAACCCT
1099 -AACCCT
1 AAACCCT
1105 AAA-CCT
1 AAACCCT
1111 AAACCCT
1 AAACCCT
*
1118 AAAACCT
1 AAACCCT
1125 AAACCCT
1 AAACCCT
1132 AAACCCT
1 AAACCCT
1139 AAACCCT
1 AAACCCT
1146 -AACCCT
1 AAACCCT
1152 AAACCCT
1 AAACCCT
1159 AAACCCT
1 AAACCCT
1166 AAACCCT
1 AAACCCT
1173 -AACCCT
1 AAACCCT
1179 AAACCCT
1 AAACCCT
1186 AAACCCT
1 AAACCCT
1193 AAACCCT
1 AAACCCT
1200 AAACCCT
1 AAACCCT
1207 AAAACCCT
1 -AAACCCT
1215 AAACCCT
1 AAACCCT
1222 AAACCCT
1 AAACCCT
1229 AAACCCT
1 AAACCCT
1236 AAACCCT
1 AAACCCT
1243 AAACCC-
1 AAACCCT
1249 AAACCCT
1 AAACCCT
1256 AAACCCT
1 AAACCCT
1263 AAACCCT
1 AAACCCT
1270 -AACCCT
1 AAACCCT
1276 AAA-CCT
1 AAACCCT
1282 AAACCCT
1 AAACCCT
1289 AAACCCT
1 AAACCCT
1296 -AACCCT
1 AAACCCT
1302 AAACCCT
1 AAACCCT
1309 AAACCCT
1 AAACCCT
1316 AAACCCT
1 AAACCCT
1323 AAACCCT
1 AAACCCT
1330 AAACCCT
1 AAACCCT
1337 AAACCCT
1 AAACCCT
1344 AAACCCT
1 AAACCCT
1351 AAACCCT
1 AAACCCT
1358 AAACCCT
1 AAACCCT
1365 AAACCCT
1 AAACCCT
1372 AAACCCT
1 AAACCCT
1379 AAACCC-
1 AAACCCT
1385 AAACCCTT
1 AAACCC-T
1393 AAACCCT
1 AAACCCT
1400 -AACCCT
1 AAACCCT
1406 AAACCCT
1 AAACCCT
1413 AAAACCCT
1 -AAACCCT
1421 AAACCCT
1 AAACCCT
1428 AAACCCT
1 AAACCCT
1435 AAACCC-
1 AAACCCT
1441 -AACCCT
1 AAACCCT
1447 AAACCCT
1 AAACCCT
1454 AAACCCT
1 AAACCCT
1461 AAACCCT
1 AAACCCT
1468 AAACCCT
1 AAACCCT
1475 AAAACCCT
1 -AAACCCT
1483 AAACCCT
1 AAACCCT
1490 AAACCCT
1 AAACCCT
1497 AAACCCT
1 AAACCCT
1504 AAACCCT
1 AAACCCT
1511 AAAACCCT
1 -AAACCCT
1519 AAACCCT
1 AAACCCT
1526 AAACCCT
1 AAACCCT
1533 AAACCC-
1 AAACCCT
1539 -AACCCT
1 AAACCCT
1545 AAACCCT
1 AAACCCT
1552 AAACCCT
1 AAACCCT
1559 AAACCCCT
1 AAA-CCCT
1567 AAACCCT
1 AAACCCT
1574 AAACCCT
1 AAACCCT
1581 AAACCCT
1 AAACCCT
1588 AAACCCT
1 AAACCCT
1595 AAACCCT
1 AAACCCT
1602 AAACCCT
1 AAACCCT
1609 AAACCCT
1 AAACCCT
1616 AAACCCT
1 AAACCCT
1623 AAACCCT
1 AAACCCT
1630 AAACCCT
1 AAACCCT
1637 AAAACCCT
1 -AAACCCT
1645 -AACCCT
1 AAACCCT
1651 AAACCCT
1 AAACCCT
1658 AAACCCT
1 AAACCCT
1665 AAACCCT
1 AAACCCT
1672 AAA-CCT
1 AAACCCT
1678 AAACCCT
1 AAACCCT
1685 AAACCCT
1 AAACCCT
1692 AAACCCT
1 AAACCCT
1699 AAACCCT
1 AAACCCT
1706 AAACCCTT
1 AAACCC-T
1714 AAAACCCT
1 -AAACCCT
1722 AAA-CCT
1 AAACCCT
1728 AAACCCT
1 AAACCCT
1735 AAACCCT
1 AAACCCT
1742 AAA-CCT
1 AAACCCT
1748 AAACCCT
1 AAACCCT
1755 AAACCCT
1 AAACCCT
1762 AAACCC-
1 AAACCCT
1768 AAACCCT
1 AAACCCT
1775 AAACCCT
1 AAACCCT
1782 AAACCCT
1 AAACCCT
1789 AAACCCT
1 AAACCCT
1796 AAA-CCT
1 AAACCCT
1802 AAACCCT
1 AAACCCT
1809 AAACCCT
1 AAACCCT
1816 AAACCCT
1 AAACCCT
1823 AAAACCCT
1 -AAACCCT
1831 AAACCCT
1 AAACCCT
1838 AAACCCT
1 AAACCCT
1845 AAACCCT
1 AAACCCT
1852 AAACCCT
1 AAACCCT
1859 AAA-CCT
1 AAACCCT
1865 AAACCCT
1 AAACCCT
1872 AAACCCT
1 AAACCCT
1879 AAAACCCT
1 -AAACCCT
1887 AAACCCT
1 AAACCCT
1894 AAA-CCT
1 AAACCCT
1900 AAACCCT
1 AAACCCT
1907 AAACCCT
1 AAACCCT
1914 AAA-CCT
1 AAACCCT
1920 AAACCCT
1 AAACCCT
1927 AAACCCT
1 AAACCCT
1934 AAACCCT
1 AAACCCT
1941 AAAACCCT
1 -AAACCCT
1949 AAACCCT
1 AAACCCT
1956 AAAACCCT
1 -AAACCCT
1964 AAA-CCT
1 AAACCCT
1970 AAAACCCT
1 -AAACCCT
1978 AAACCCT
1 AAACCCT
1985 AAAACCCT
1 -AAACCCT
1993 AAACCCT
1 AAACCCT
2000 AAACCCT
1 AAACCCT
2007 AAA-CCT
1 AAACCCT
2013 AAAACCCT
1 -AAACCCT
2021 AAACCCT
1 AAACCCT
2028 AAAACCC-
1 -AAACCCT
2035 -AACCCT
1 AAACCCT
2041 AAACCCT
1 AAACCCT
2048 AAACCCT
1 AAACCCT
2055 AAAACCCT
1 -AAACCCT
2063 AAACCCT
1 AAACCCT
2070 AAACCCT
1 AAACCCT
2077 AAAACCCT
1 -AAACCCT
2085 AAACCCT
1 AAACCCT
2092 AAAACCCT
1 -AAACCCT
2100 AAAACCCT
1 -AAACCCT
2108 AAACCCT
1 AAACCCT
2115 AAA-CCT
1 AAACCCT
2121 AAACCC-
1 AAACCCT
2127 AAACCCT
1 AAACCCT
2134 AAACCCT
1 AAACCCT
2141 AAACCCT
1 AAACCCT
*
2148 AAACCCA
1 AAACCCT
2155 AAACCCT
1 AAACCCT
2162 AAAACCCT
1 -AAACCCT
2170 AAACCCT
1 AAACCCT
2177 AAAACCCT
1 -AAACCCT
2185 AAAACCCT
1 -AAACCCT
2193 AAAACCCT
1 -AAACCCT
2201 AAACCCT
1 AAACCCT
2208 AAAACCCT
1 -AAACCCT
2216 AAAACCCT
1 -AAACCCT
2224 AAACCCT
1 AAACCCT
2231 AAAACCCT
1 -AAACCCT
2239 AAACCCT
1 AAACCCT
2246 AAAACCCT
1 -AAACCCT
2254 AAACCCT
1 AAACCCT
2261 AAACCCT
1 AAACCCT
2268 AAACCCT
1 AAACCCT
2275 AAAACCCT
1 -AAACCCT
2283 AAACCCT
1 AAACCCT
2290 AAACCCT
1 AAACCCT
2297 AAACCCT
1 AAACCCT
2304 AAAACCCT
1 -AAACCCT
2312 AAACCCT
1 AAACCCT
*
2319 AAACCTT
1 AAACCCT
2326 AAACCCT
1 AAACCCT
2333 AAAACCCT
1 -AAACCCT
2341 AAACCCT
1 AAACCCT
2348 AAACCCT
1 AAACCCT
2355 AAACCCT
1 AAACCCT
2362 AAAACCCT
1 -AAACCCT
2370 AAACCCT
1 AAACCCT
*
2377 AGACCCT
1 AAACCCT
2384 AAACCCT
1 AAACCCT
*
2391 AAAACCCAA
1 -AAACCC-T
2400 AAACCCT
1 AAACCCT
2407 AAACCCT
1 AAACCCT
2414 AAACCCT
1 AAACCCT
2421 AAAACCCT
1 -AAACCCT
2429 AAAACCCT
1 -AAACCCT
2437 AAACCCT
1 AAACCCT
2444 AAACCCT
1 AAACCCT
2451 AAACCCT
1 AAACCCT
2458 AAACCCT
1 AAACCCT
2465 AAACCCT
1 AAACCCT
*
2472 -AACCCA
1 AAACCCT
2478 AAACCCT
1 AAACCCT
*
2485 AAATCCT
1 AAACCCT
*
2492 AACCCCCT
1 AA-ACCCT
2500 AAACCCT
1 AAACCCT
* *
2507 AACCCCCA
1 AA-ACCCT
2515 AAACCCT
1 AAACCCT
*
2522 AAACCTT
1 AAACCCT
*
2529 AAACCCC
1 AAACCCT
*
2536 AAACCCC
1 AAACCCT
2543 AAACCCT
1 AAACCCT
2550 AAACCCTT
1 AAACCC-T
*
2558 AAACCCCA
1 AAA-CCCT
*
2566 AAACCCCA
1 AAA-CCCT
2574 AAACCCT
1 AAACCCT
2581 AAAACCCT
1 -AAACCCT
*
2589 AAACCCCA
1 AAA-CCCT
2597 AAACCCT
1 AAACCCT
*
2604 AAACCCC
1 AAACCCT
2611 AAACCCTT
1 AAACCC-T
2619 AAACCCT
1 AAACCCT
2626 AAAAACCCT
1 --AAACCCT
2635 AAACCCT
1 AAACCCT
2642 AAACCCT
1 AAACCCT
*
2649 AAACCCC
1 AAACCCT
*
2656 AATCCCT
1 AAACCCT
*
2663 AAAACCTT
1 -AAACCCT
2671 AAACCCT
1 AAACCCT
2678 AAAAACCCT
1 --AAACCCT
2687 AAAACCCT
1 -AAACCCT
2695 AAA-CCT
1 AAACCCT
2701 AAACCCT
1 AAACCCT
2708 AAACCCT
1 AAACCCT
2715 AAACCCT
1 AAACCCT
2722 AAACCCT
1 AAACCCT
2729 AAACCCT
1 AAACCCT
2736 AAAACCCT
1 -AAACCCT
2744 AAACCCT
1 AAACCCT
2751 AAACCCT
1 AAACCCT
2758 AAACCCT
1 AAACCCT
2765 AAAACCCT
1 -AAACCCT
*
2773 AAGCCCT
1 AAACCCT
*
2780 AAGCCCT
1 AAACCCT
*
2787 AAGCCCT
1 AAACCCT
2794 AAAACCCT
1 -AAACCCT
*
2802 AAGCCCT
1 AAACCCT
*
2809 AAGCCCT
1 AAACCCT
*
2816 -AAGCCT
1 AAACCCT
*
2822 AAGCCCT
1 AAACCCT
*
2829 AAGCCCT
1 AAACCCT
*
2836 AAGCCCT
1 AAACCCT
*
2843 AAGCCCT
1 AAACCCT
*
2850 AAGCCCT
1 AAACCCT
*
2857 AAGCCCT
1 AAACCCT
*
2864 AAGCCCT
1 AAACCCT
*
2871 AAGCCCT
1 AAACCCT
*
2878 AAGCCCT
1 AAACCCT
*
2885 AAGCCCT
1 AAACCCT
*
2892 AAGCCCT
1 AAACCCT
*
2899 AAGCCCT
1 AAACCCT
*
2906 AAGCCCT
1 AAACCCT
2913 -AACCCT
1 AAACCCT
*
2919 AACCCCT
1 AAACCCT
*
2926 AACCCCT
1 AAACCCT
*
2933 AACCCCT
1 AAACCCT
*
2940 AACCCCT
1 AAACCCT
2947 AAACCCT
1 AAACCCT
2954 AAACCCT
1 AAACCCT
*
2961 AAAACCCC
1 -AAACCCT
*
2969 AAACCCC
1 AAACCCT
*
2976 AAACCCC
1 AAACCCT
*
2983 AAACCCC
1 AAACCCT
2990 AAACCCT
1 AAACCCT
*
2997 AAAACCCC
1 -AAACCCT
*
3005 AAACCCC
1 AAACCCT
*
3012 AAACCCC
1 AAACCCT
*
3019 AAACCTT
1 AAACCCT
3026 AAACCCT
1 AAACCCT
*
3033 AAAACCT
1 AAACCCT
3040 AAACCCT
1 AAACCCT
3047 AAAACCCT
1 -AAACCCT
3055 AAAACCC-
1 -AAACCCT
3062 AAACCCT
1 AAACCCT
3069 AAAACCCT
1 -AAACCCT
3077 AAAACCCT
1 -AAACCCT
*
3085 AAAGCCT
1 AAACCCT
* *
3092 AAATCTT
1 AAACCCT
3099 AAACCCT
1 AAACCCT
3106 AAAACCCT
1 -AAACCCT
3114 AAAACCCT
1 -AAACCCT
3122 AAACCCT
1 AAACCCT
*
3129 AAACTCCA
1 AAAC-CCT
3137 AAACCCT
1 AAACCCT
3144 -AACCCT
1 AAACCCT
*
3150 CAAACCCCC
1 -AAA-CCCT
*
3159 AAA-CTT
1 AAACCCT
*
3165 GAACCCT
1 AAACCCT
*
3172 GAACCCT
1 AAACCCT
* *
3179 GACCCCT
1 AAACCCT
3186 AAACCCT
1 AAACCCT
*
3193 GAACCCT
1 AAACCCT
*
3200 -GACCCT
1 AAACCCT
* *
3206 GACCCCT
1 AAACCCT
3213 AAACCCT
1 AAACCCT
*
3220 GAACCCT
1 AAACCCT
* *
3227 GAACCTT
1 AAACCCT
* *
3234 GACCCCT
1 AAACCCT
*
3241 AACCCCT
1 AAACCCT
*
3248 -GACCCTT
1 AAACCC-T
* *
3255 GACCCCT
1 AAACCCT
* *
3262 AATCTCT
1 AAACCCT
*
3269 AACCCCT
1 AAACCCT
3276 AAACCCT
1 AAACCCT
3283 AAAACCCT
1 -AAACCCT
*
3291 AAGCCCT
1 AAACCCT
* *
3298 AAGCCAT
1 AAACCCT
*
3305 AAGCCCT
1 AAACCCT
3312 AAACCCT
1 AAACCCT
3319 AAACCC
1 AAACCC
3325 AGTTATCAAA
Statistics
Matches: 3085, Mismatches: 98, Indels: 268
0.89 0.03 0.08
Matches are distributed among these distances:
4 5 0.00
5 24 0.01
6 286 0.09
7 2273 0.74
8 464 0.15
9 33 0.01
ACGTcount: A:0.43, C:0.42, G:0.01, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:6374 original size:44 final size:44
Alignment explanation
Indices: 6316--6415 Score: 155
Period size: 44 Copynumber: 2.3 Consensus size: 44
6306 CTGACCACAT
* * *
6316 TTATTACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCACTGATCAAATAAGTGTAACTAAAACTACCAC
*
6360 TTATCACTTGTCACTGATCAAATAAGTGTAACTAAAGCTACCAC
1 TTATCACTTGTCACTGATCAAATAAGTGTAACTAAAACTACCAC
*
6404 TTATCATTTGTC
1 TTATCACTTGTC
6416 GCTTGTCGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAAATAAGTGTAACTAAAACTACCAC
Found at i:28476 original size:18 final size:19
Alignment explanation
Indices: 28455--28492 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
28445 ATAAAGGAGG
28455 AAAGAGAAAA-AG-AGAAAA
1 AAAGA-AAAATAGTAGAAAA
28473 AAAGAAAAATAGTAGAAAA
1 AAAGAAAAATAGTAGAAAA
28492 A
1 A
28493 TGGAGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (19 bp):
AAAGAAAAATAGTAGAAAA
Found at i:32583 original size:26 final size:26
Alignment explanation
Indices: 32547--32610 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
32537 CTAGCAGTAT
*
32547 GACTAACTAATATGCATTGATCCATG
1 GACTGACTAATATGCATTGATCCATG
32573 GACTGACTAATATGCATTGATCCATG
1 GACTGACTAATATGCATTGATCCATG
32599 GACTGACTAATA
1 GACTGACTAATA
32611 CGCACCACCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (26 bp):
GACTGACTAATATGCATTGATCCATG
Found at i:34354 original size:2 final size:2
Alignment explanation
Indices: 34349--34381 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
34339 CTGTGTGTGC
*
34349 GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
34382 CATATGAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35220 original size:17 final size:17
Alignment explanation
Indices: 35198--35231 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35188 GGCTTGAGAG
35198 CTGAAACGAAGGAAACT
1 CTGAAACGAAGGAAACT
*
35215 CTGAAATGAAGGAAACT
1 CTGAAACGAAGGAAACT
35232 ATGTAAGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.24, T:0.15
Consensus pattern (17 bp):
CTGAAACGAAGGAAACT
Found at i:39324 original size:14 final size:14
Alignment explanation
Indices: 39305--39346 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
39295 AAACCCGTGC
39305 ATATTAAATTTTTT
1 ATATTAAATTTTTT
39319 ATATT--ATTTTTT
1 ATATTAAATTTTTT
*
39331 ATATATAATTTTTTT
1 ATAT-TAAATTTTTT
39346 A
1 A
39347 AAAACCCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 5 0.21
15 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATATTAAATTTTTT
Found at i:39329 original size:12 final size:14
Alignment explanation
Indices: 39311--39344 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
39301 GTGCATATTA
39311 AATTTTTTATAT-T
1 AATTTTTTATATAT
39324 -ATTTTTTATATAT
1 AATTTTTTATATAT
39337 AATTTTTT
1 AATTTTTT
39345 TAAAAACCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
AATTTTTTATATAT
Found at i:41698 original size:14 final size:14
Alignment explanation
Indices: 41679--41706 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41669 AGATGAGTGT
41679 CATGGTCAAAACAA
1 CATGGTCAAAACAA
41693 CATGGTCAAAACAA
1 CATGGTCAAAACAA
41707 AAATGTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
CATGGTCAAAACAA
Found at i:53149 original size:35 final size:35
Alignment explanation
Indices: 53103--53174 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
53093 GCGTTTTCAC
53103 AACCAAAACATTCATGTAGAATTCAGAGAGGTTAT
1 AACCAAAACATTCATGTAGAATTCAGAGAGGTTAT
53138 AACCAAAACATTCATGTAGAATTCAGAGAGGTTAT
1 AACCAAAACATTCATGTAGAATTCAGAGAGGTTAT
53173 AA
1 AA
53175 AGTGAACTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (35 bp):
AACCAAAACATTCATGTAGAATTCAGAGAGGTTAT
Found at i:54059 original size:47 final size:47
Alignment explanation
Indices: 53990--54089 Score: 159
Period size: 47 Copynumber: 2.1 Consensus size: 47
53980 CTTCAATACA
*
53990 GTTACATACAATATCTTTACCTGATTCAAAC-CACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTC-AACTCACCTAATCAAGCTTT
*
54037 GTTACATACAATATCTCTACCTGATTCAGCTCACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTCAACTCACCTAATCAAGCTTT
54084 G-TACAT
1 GTTACAT
54090 TAGGTCTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
46 7 0.14
47 43 0.86
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (47 bp):
GTTACATACAATATCTCTACCTGATTCAACTCACCTAATCAAGCTTT
Found at i:55674 original size:17 final size:17
Alignment explanation
Indices: 55652--55690 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
55642 TTTACTAATA
55652 TTATTTCCATTATTTAG
1 TTATTTCCATTATTTAG
55669 TTATTTCCATTATTTAG
1 TTATTTCCATTATTTAG
55686 TTATT
1 TTATT
55691 AATATCTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (17 bp):
TTATTTCCATTATTTAG
Found at i:56873 original size:68 final size:68
Alignment explanation
Indices: 56801--56936 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
56791 TAAATTCAAA
56801 TTATAGTAATACTAACACGTATTTCTCATTCAATTCAATTTTCTAAATTCAATTCAATAAAATTA
1 TTATAGTAATACTAACACGTATTTCTCATTCAATTCAATTTTCTAAATTCAATTCAATAAAATTA
56866 CTT
66 CTT
56869 TTATAGTAATACTAACACGTATTTCTCATTCAATTCAATTTTCTAAATTCAATTCAATAAAATTA
1 TTATAGTAATACTAACACGTATTTCTCATTCAATTCAATTTTCTAAATTCAATTCAATAAAATTA
56934 CTT
66 CTT
56937 ACCTCAATAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (68 bp):
TTATAGTAATACTAACACGTATTTCTCATTCAATTCAATTTTCTAAATTCAATTCAATAAAATTA
CTT
Found at i:61650 original size:24 final size:24
Alignment explanation
Indices: 61622--61678 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
61612 AATTCAAAAT
* *
61622 AAATTATAATTAT-TCAAAACTTTC
1 AAATTATAAATATAT-AAAAATTTC
*
61646 AAATTAAAAATATATAAAAATTTC
1 AAATTATAAATATATAAAAATTTC
61670 AAATATATA
1 AAAT-TATA
61679 TTCAGAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATTATAAATATATAAAAATTTC
Found at i:61703 original size:26 final size:26
Alignment explanation
Indices: 61669--61720 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
61659 ATAAAAATTT
61669 CAAATATATATT-CAGAAATATAAAAA
1 CAAATATATATTACA-AAATATAAAAA
*
61695 CAAATATATGTTACAAAATATAAAAA
1 CAAATATATATTACAAAATATAAAAA
61721 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.27
Consensus pattern (26 bp):
CAAATATATATTACAAAATATAAAAA
Found at i:65253 original size:47 final size:47
Alignment explanation
Indices: 65184--65277 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
65174 CTTCAATACA
* *
65184 GTTACATACAATATCTTTACCTGATTCAAAC-CACCTAATCAAGCTTT
1 GTTACATACAATATCTCTACCTGATTC-AACTCACCTAATCAAACTTT
*
65231 GTTACATACAATATCTCTACCTGATTCAGCTCACCTAATCAAACTTT
1 GTTACATACAATATCTCTACCTGATTCAACTCACCTAATCAAACTTT
65278 ATACATTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 2 0.05
47 41 0.95
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (47 bp):
GTTACATACAATATCTCTACCTGATTCAACTCACCTAATCAAACTTT
Found at i:67368 original size:31 final size:33
Alignment explanation
Indices: 67300--67372 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
67290 TGAATATGTT
*
67300 AAAAATATATAAAAATAAAATATAATTGTTGAC
1 AAAAATATATAAAAATAAAAAATAATTGTTGAC
*
67333 AAAAATATATAAAAATATAAAAAT-ATT-TTTA-
1 AAAAATATATAAAAATA-AAAAATAATTGTTGAC
67364 AAAAATATA
1 AAAAATATA
67373 ATCATAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 9 0.24
32 3 0.08
33 20 0.54
34 5 0.14
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (33 bp):
AAAAATATATAAAAATAAAAAATAATTGTTGAC
Found at i:67430 original size:31 final size:27
Alignment explanation
Indices: 67395--67452 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 27
67385 ATTAATATTA
67395 ATATTAATATTAATATTAAATAAAAATAACT
1 ATATTAATA-TAA-ATTAAA-AAAAA-AACT
67426 ATATTAATATAAATTAAAAAAAAAACT
1 ATATTAATATAAATTAAAAAAAAAACT
67453 CCCCACCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 4 0.15
28 5 0.19
29 6 0.22
30 3 0.11
31 9 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
ATATTAATATAAATTAAAAAAAAAACT
Found at i:67435 original size:6 final size:6
Alignment explanation
Indices: 67382--67413 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
67372 AATCATAATA
67382 AATATT AATATT AATATT AATATT AATATT AA
1 AATATT AATATT AATATT AATATT AATATT AA
67414 ATAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AATATT
Found at i:72300 original size:92 final size:93
Alignment explanation
Indices: 72170--72354 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 93
72160 AGCAATCCTT
* *
72170 TTCTTAGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTAACTTTTGTTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
72235 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
*
72263 TTCTTCGCCTTTATTAAC-TTTGTTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTAACTTTTGTTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
*
72327 TGTTTATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
72355 CTGGCAGCTC
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 72 0.82
93 16 0.18
ACGTcount: A:0.18, C:0.11, G:0.15, T:0.56
Consensus pattern (93 bp):
TTCTTAGCCTTTATTAACTTTTGTTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
TGTTGATTCATCTTTTTTCTATTATTTC
Found at i:72814 original size:16 final size:16
Alignment explanation
Indices: 72793--72825 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
72783 AGGTAAATGC
*
72793 TATTTGTCAATTCCCA
1 TATTTGTCAATTACCA
72809 TATTTGTCAATTACCA
1 TATTTGTCAATTACCA
72825 T
1 T
72826 TCAACATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (16 bp):
TATTTGTCAATTACCA
Found at i:73770 original size:36 final size:37
Alignment explanation
Indices: 73730--73818 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 37
73720 TAAATTATTG
73730 TAATATATGTAAAAATAATTTAA-A-ATATAAATTTAT
1 TAATATATGTAAAAATAA-TTAATATATATAAATTTAT
* * *
73766 TAATATATAT-AAATTTATTAATATATATAAATTTAT
1 TAATATATGTAAAAATAATTAATATATATAAATTTAT
73802 TAATATATGTAAAAATA
1 TAATATATGTAAAAATA
73819 GTTTTTCTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
34 4 0.09
35 6 0.14
36 30 0.68
37 4 0.09
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (37 bp):
TAATATATGTAAAAATAATTAATATATATAAATTTAT
Found at i:73775 original size:18 final size:18
Alignment explanation
Indices: 73754--73814 Score: 113
Period size: 18 Copynumber: 3.4 Consensus size: 18
73744 ATAATTTAAA
73754 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
73772 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
73790 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
73808 ATGTAAA
1 ATATAAA
73815 AATAGTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:75388 original size:16 final size:16
Alignment explanation
Indices: 75367--75414 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
75357 TTGTTTAATT
75367 GAAAAATTAAGTATTA
1 GAAAAATTAAGTATTA
* * *
75383 GAAAAAATAAATATAA
1 GAAAAATTAAGTATTA
*
75399 AAAAAATTAAGTATTA
1 GAAAAATTAAGTATTA
75415 AATTTAAGTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (16 bp):
GAAAAATTAAGTATTA
Found at i:87940 original size:2 final size:2
Alignment explanation
Indices: 87933--87965 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
87923 CTAATGCACG
87933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87966 GATAGATAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88554 original size:31 final size:31
Alignment explanation
Indices: 88511--88572 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
88501 TTTAGGTGAA
* *
88511 ATACAAATTTTAATTATTA-TTATTATTTTTT
1 ATACAAATTTTAA-AATTACTTATAATTTTTT
88542 ATAC-AATATTTAAAATTACTTATAATTTTTT
1 ATACAAAT-TTTAAAATTACTTATAATTTTTT
88573 TAAGTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (31 bp):
ATACAAATTTTAAAATTACTTATAATTTTTT
Found at i:89251 original size:46 final size:46
Alignment explanation
Indices: 89201--89289 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
89191 AAAACTTAGA
* *
89201 TAAATAAATTTATTAATTAGAAATGGGTTTAGGTGATGTTTTTTTT
1 TAAATAAATATAATAATTAGAAATGGGTTTAGGTGATGTTTTTTTT
**
89247 TAAATAAATATAATAATTAGAGTTGGGTTTAGGTGATGTTTTT
1 TAAATAAATATAATAATTAGAAATGGGTTTAGGTGATGTTTTT
89290 GACCTCTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (46 bp):
TAAATAAATATAATAATTAGAAATGGGTTTAGGTGATGTTTTTTTT
Found at i:114756 original size:21 final size:19
Alignment explanation
Indices: 114731--114780 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
114721 CGGATTAGGT
114731 TTAAAATAAAAATT-TATAA
1 TTAAAATAAAAATTATA-AA
*
114750 TTATAAATTATAAATTATAAA
1 TTA-AAA-TAAAAATTATAAA
114771 TTAAAATAAA
1 TTAAAATAAA
114781 TAAAAAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 12 0.46
22 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAATAAAAATTATAAA
Found at i:114758 original size:7 final size:7
Alignment explanation
Indices: 114744--114777 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
114734 AAATAAAAAT
114744 TTAT-AA
1 TTATAAA
114750 TTATAAA
1 TTATAAA
114757 TTATAAA
1 TTATAAA
114764 TTATAAA
1 TTATAAA
114771 TTA-AAA
1 TTATAAA
114777 T
1 T
114778 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 8 0.30
7 19 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTATAAA
Found at i:123128 original size:57 final size:57
Alignment explanation
Indices: 123060--123172 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
123050 GAATAAGAAC
* * * *
123060 GATTGGTAGAGGTTATCATGGTTTGGTTTTGTTCAGTTAGAAGGTCTACCTTCGTAA
1 GATTGGTAGAGGCTATCAAGGTTTGGTTTTGTTCAGCTAGAAGATCTACCTTCGTAA
*
123117 GATTGGTAGAGGCTGTCAAGGTTTGGTTTTGTTCAGCTAGAAGATCTACCTTCGTA
1 GATTGGTAGAGGCTATCAAGGTTTGGTTTTGTTCAGCTAGAAGATCTACCTTCGTA
123173 TCTACCAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.38
Consensus pattern (57 bp):
GATTGGTAGAGGCTATCAAGGTTTGGTTTTGTTCAGCTAGAAGATCTACCTTCGTAA
Found at i:135849 original size:6 final size:6
Alignment explanation
Indices: 135838--135867 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
135828 TAAAAGACAT
135838 AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
135868 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:135883 original size:17 final size:18
Alignment explanation
Indices: 135852--135897 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 18
135842 TAAAAATAAA
135852 AATAAAAATA-A-AAA-T
1 AATAAAAATATATAAATT
*
135867 ATTAAAAATATATAAATT
1 AATAAAAATATATAAATT
135885 AATAAAAA-ATATA
1 AATAAAAATATATA
135898 TTTTTTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 8 0.31
18 8 0.31
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AATAAAAATATATAAATT
Found at i:136014 original size:18 final size:18
Alignment explanation
Indices: 135993--136058 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
135983 CATTTATAAC
*
135993 TTTATAAATTTGTAAATT
1 TTTATAAATTTATAAATT
**
136011 TTTAT--ATTTATGGATT
1 TTTATAAATTTATAAATT
136027 TTTATAAATTTAT-AATGT
1 TTTATAAATTTATAAAT-T
136045 TTTA-AAATTT-TAAA
1 TTTATAAATTTATAAA
136059 ATATATATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 14 0.35
17 10 0.25
18 16 0.40
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTATAAATTTATAAATT
Found at i:141511 original size:58 final size:58
Alignment explanation
Indices: 141432--141548 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
141422 TAGCATTACA
141432 TATGTTTACCACATCAAATATGAAAATATCATAACTAAATGAATTTAATAGCTACAAT
1 TATGTTTACCACATCAAATATGAAAATATCATAACTAAATGAATTTAATAGCTACAAT
141490 TATGTTTACCACATCAAATATGAAAATATCATAACTAAATGAATTTAATAGCTACAAT
1 TATGTTTACCACATCAAATATGAAAATATCATAACTAAATGAATTTAATAGCTACAAT
141548 T
1 T
141549 TGGTTAGAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (58 bp):
TATGTTTACCACATCAAATATGAAAATATCATAACTAAATGAATTTAATAGCTACAAT
Found at i:143853 original size:2 final size:2
Alignment explanation
Indices: 143848--143872 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
143838 TTCTATATAT
143848 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
143873 TGAAGCGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:159231 original size:19 final size:20
Alignment explanation
Indices: 159194--159241 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
159184 CTTAATTGAC
*
159194 TTTTAAAATTATATAAAAAT
1 TTTTAAAAATATATAAAAAT
*
159214 TTTTAAAAATA-ATTAAAAT
1 TTTTAAAAATATATAAAAAT
*
159233 TTATAAAAA
1 TTTTAAAAA
159242 GAGTTGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTAAAAATATATAAAAAT
Found at i:159578 original size:19 final size:18
Alignment explanation
Indices: 159556--159600 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
159546 CTCAATAAAA
*
159556 TTTTATATTTTTTATTAAT
1 TTTTATATTTTTAATT-AT
159575 TTTTATCA-TTTTAATTAT
1 TTTTAT-ATTTTTAATTAT
159593 TTTTATAT
1 TTTTATAT
159601 AATTGTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 8 0.35
19 13 0.57
20 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATATTTTTAATTAT
Found at i:160481 original size:17 final size:17
Alignment explanation
Indices: 160455--160490 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
160445 TGTCTGGAAA
*
160455 ATTAATAATTAAATTAT
1 ATTAAAAATTAAATTAT
160472 ATTAAAAATTAAATTAT
1 ATTAAAAATTAAATTAT
160489 AT
1 AT
160491 AGATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAAAAATTAAATTAT
Found at i:171226 original size:22 final size:22
Alignment explanation
Indices: 171174--171226 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
171164 TTCGCTTCAT
*
171174 TTCATTGAAAAACAATGAAAAA
1 TTCATAGAAAAACAATGAAAAA
* * * * *
171196 TTGAGAGAAAAACATTGTAAGA
1 TTCATAGAAAAACAATGAAAAA
171218 TTCATAGAA
1 TTCATAGAA
171227 TTTTGCTCTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.25
Consensus pattern (22 bp):
TTCATAGAAAAACAATGAAAAA
Found at i:171487 original size:3 final size:3
Alignment explanation
Indices: 171479--171504 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
171469 CAGCTACTAA
171479 CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CA
171505 GCATCAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:175178 original size:29 final size:28
Alignment explanation
Indices: 175145--175215 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
175135 TATAAATAAG
* *
175145 TTATTTGAATATTTTTAAAAAAATATACT
1 TTATTT-AATATTTTTAAAAAAATAGAAT
*
175174 TTATTTCAA-ATTTTTAATAAAATAGAAT
1 TTATTT-AATATTTTTAAAAAAATAGAAT
*
175202 TAATTTAATATTTT
1 TTATTTAATATTTT
175216 CTACATAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.06
28 26 0.72
29 8 0.22
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
TTATTTAATATTTTTAAAAAAATAGAAT
Found at i:175207 original size:28 final size:28
Alignment explanation
Indices: 175147--175224 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
175137 TAAATAAGTT
* * * *
175147 ATTTGAATATTTTTAAAAAAATATACTTT
1 ATTT-AATATTTTTAATAAAATAGAATTA
175176 ATTTCAA-ATTTTTAATAAAATAGAATTA
1 ATTT-AATATTTTTAATAAAATAGAATTA
175204 ATTTAATATTTTCTACATAAA
1 ATTTAATATTTT-TA-ATAAA
175225 TGGATAAGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 2 0.05
28 26 0.63
29 8 0.20
30 5 0.12
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (28 bp):
ATTTAATATTTTTAATAAAATAGAATTA
Found at i:185193 original size:27 final size:27
Alignment explanation
Indices: 185161--185216 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
185151 ACATACAACC
185161 AAACATGGATCCTTTACTTGCTTTAGG
1 AAACATGGATCCTTTACTTGCTTTAGG
185188 AAACATGGATCCTTTACTTGCTTTAGG
1 AAACATGGATCCTTTACTTGCTTTAGG
185215 AA
1 AA
185217 CTTTCTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
AAACATGGATCCTTTACTTGCTTTAGG
Found at i:196309 original size:21 final size:20
Alignment explanation
Indices: 196280--196327 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
196270 ATTAAATATA
*
196280 TAATGATATAATAAACTAAAT
1 TAATAATATAAT-AACTAAAT
* *
196301 TAATAATATTATAATTAAAT
1 TAATAATATAATAACTAAAT
196321 TATATAA
1 TA-ATAA
196328 ACTTCATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATATAATAACTAAAT
Found at i:203135 original size:39 final size:39
Alignment explanation
Indices: 203090--203172 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
203080 ATTCAAGACA
203090 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
*
203129 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
203168 CTGGA
1 CTGGA
203173 GGCTTCGTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:203187 original size:53 final size:53
Alignment explanation
Indices: 203119--203224 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
203109 AAAGTCCCGC
203119 AGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
203172 AGGCTTCGTGTTGGAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTGG
1 AGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
203225 TAATATAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.27
Consensus pattern (53 bp):
AGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:206786 original size:19 final size:19
Alignment explanation
Indices: 206748--206787 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
206738 CATTCTTGTA
*
206748 TTATTATTTTTAGCATATT
1 TTATTATTTTTAGCACATT
206767 TTATTATTATTTAG-ACATT
1 TTATTATT-TTTAGCACATT
206786 TT
1 TT
206788 TTTAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTTTTAGCACATT
Found at i:206853 original size:22 final size:22
Alignment explanation
Indices: 206804--206855 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
206794 TTAATATTAC
**
206804 ATATATATATTTTATAGTTGTT
1 ATATATATATTTTATAGTTCCT
*
206826 ATATATATATTATTATTGTTCCT
1 ATATATATATT-TTATAGTTCCT
206849 A-ATATAT
1 ATATATAT
206856 GTTTCATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (22 bp):
ATATATATATTTTATAGTTCCT
Found at i:207175 original size:19 final size:18
Alignment explanation
Indices: 207151--207191 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
207141 TGTAAATATC
*
207151 ATATTATGTTCTATCATGT
1 ATATTATG-TATATCATGT
*
207170 ATATTATGTATGTCATGT
1 ATATTATGTATATCATGT
207188 ATAT
1 ATAT
207192 GTTTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.51
Consensus pattern (18 bp):
ATATTATGTATATCATGT
Found at i:210454 original size:23 final size:23
Alignment explanation
Indices: 210400--210460 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
210390 GGCACATAAA
210400 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
210421 GTGCTTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
210442 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
210461 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 23 0.68
23 10 0.29
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:210468 original size:23 final size:23
Alignment explanation
Indices: 210386--210472 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
210376 CCTTATCAAT
* *
210386 ATACGGCACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
210408 A-ACGACACACGAGGTGCTTG--
1 ATACGACACACAAAGTGCCTGAA
* *
210428 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
210451 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
210473 TCGGTAAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
20 1 0.02
21 31 0.60
22 1 0.02
23 19 0.37
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:210871 original size:15 final size:15
Alignment explanation
Indices: 210845--210894 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
210835 CATATATATT
210845 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
210859 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
210874 AAATAATTTCAATCA
1 ATATAATTTCAATCA
210889 ATATAA
1 ATATAA
210895 ATTCGATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
14 6 0.18
15 27 0.82
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:212181 original size:5 final size:5
Alignment explanation
Indices: 212173--212219 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
212163 TCTTTAGTTT
212173 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
212220 TAAAACATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:212255 original size:8 final size:8
Alignment explanation
Indices: 212242--212270 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
212232 TATCTTTATT
212242 ATATAATA
1 ATATAATA
212250 ATATAATA
1 ATATAATA
212258 ATATAATA
1 ATATAATA
212266 ATATA
1 ATATA
212271 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:219021 original size:21 final size:21
Alignment explanation
Indices: 218974--219026 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
218964 CATATACGTG
218974 TAATAAT-GATGAAAATAATAA
1 TAATAATAG-TGAAAATAATAA
218995 TAATAATAGTGAAAATAAATAAGA
1 TAATAATAGTGAAAAT-AAT-A-A
219019 TAATAATA
1 TAATAATA
219027 CATATAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 14 0.50
22 4 0.14
23 1 0.04
24 9 0.32
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.28
Consensus pattern (21 bp):
TAATAATAGTGAAAATAATAA
Found at i:219111 original size:9 final size:8
Alignment explanation
Indices: 219072--219204 Score: 57
Period size: 8 Copynumber: 16.6 Consensus size: 8
219062 GTGTATATAT
219072 ATATAATA
1 ATATAATA
219080 ATAT-AT-
1 ATATAATA
**
219086 ATATGCTA
1 ATATAATA
219094 ATATGAATA
1 ATAT-AATA
219103 ATGATAATA
1 AT-ATAATA
219112 ATACTAATA
1 ATA-TAATA
219121 ATAATAATA
1 AT-ATAATA
* **
219130 AAATACGA
1 ATATAATA
* *
219138 AGA-AGTA
1 ATATAATA
219145 TATATAAT-
1 -ATATAATA
219153 ATAATAATA
1 AT-ATAATA
219162 ATATTAA-A
1 ATA-TAATA
*
219170 ATACAATA
1 ATATAATA
219178 AT-TAA-A
1 ATATAATA
219184 A-ATAATA
1 ATATAATA
*
219191 TTATAATAA
1 ATATAAT-A
219200 ATATA
1 ATATA
219205 TACAACATTC
Statistics
Matches: 94, Mismatches: 15, Indels: 31
0.67 0.11 0.22
Matches are distributed among these distances:
6 9 0.10
7 12 0.13
8 35 0.37
9 35 0.37
10 3 0.03
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.34
Consensus pattern (8 bp):
ATATAATA
Found at i:219114 original size:3 final size:3
Alignment explanation
Indices: 219099--219199 Score: 52
Period size: 3 Copynumber: 34.7 Consensus size: 3
219089 TGCTAATATG
* * ** *
219099 AAT AAT GAT AAT AAT ACT AAT AAT AAT AAT AA- AAT ACG AAG AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * *
219144 -AT ATAT AAT -AT AAT AAT AAT ATT AA- AAT -AC AAT AATT AAA AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
*
219187 AAT -AT TAT AAT AA
1 AAT AAT AAT AAT AA
219200 ATATATACAA
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
2 10 0.14
3 58 0.78
4 6 0.08
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:219188 original size:26 final size:26
Alignment explanation
Indices: 219148--219206 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
219138 AGAAGTATAT
*
219148 ATAATATAATAATAATATTAAAATACA
1 ATAATATAAAAATAATATTAAAATA-A
*
219175 ATAAT-TAAAAATAATATTATAATAA
1 ATAATATAAAAATAATATTAAAATAA
219200 AT-ATATA
1 ATAATATA
219207 CAACATTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.07
25 5 0.17
26 17 0.59
27 5 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
ATAATATAAAAATAATATTAAAATAA
Found at i:219189 original size:32 final size:38
Alignment explanation
Indices: 219109--219199 Score: 112
Period size: 37 Copynumber: 2.4 Consensus size: 38
219099 AATAATGATA
219109 ATAATACTAATAATAATAATAAAATACGAAGAAGTATAT
1 ATAATA-TAATAATAATAATAAAATACGAAGAAGTATAT
* * * * *
219148 ATAATATAATAATAATATTAAAATAC-AATAATTAAAA
1 ATAATATAATAATAATAATAAAATACGAAGAAGTATAT
*
219185 ATAATATTATAATAA
1 ATAATATAATAATAA
219200 ATATATACAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 21 0.46
38 19 0.41
39 6 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (38 bp):
ATAATATAATAATAATAATAAAATACGAAGAAGTATAT
Found at i:219256 original size:3 final size:3
Alignment explanation
Indices: 219238--219283 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
219228 AAATGTATAC
* * *
219238 TAA TATA TAG TAA TAA TAA TAA TAA TAA TAA GAA TAA GAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
219284 AAAACATGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:221130 original size:13 final size:13
Alignment explanation
Indices: 221112--221136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
221102 TTTGAAACAT
221112 AGAAATTAAAAGC
1 AGAAATTAAAAGC
221125 AGAAATTAAAAG
1 AGAAATTAAAAG
221137 GCTCAACTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:221419 original size:74 final size:69
Alignment explanation
Indices: 221282--221531 Score: 254
Period size: 74 Copynumber: 3.5 Consensus size: 69
221272 ATTAAAAAGA
* * *
221282 CTCAACTCA-TCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAAAATACCTTAGCGTG
1 CTCAACTCACT-TCTCGCAATATGAGTTGA-TTTTGAAAATAGAA-TTGAAATTACCTCAGCGTG
221346 CTGCAAGG
63 CTGC-AGG
* *
221354 CTCAACTCACTTCTCGCAATATGAGTTGATTATAGATTTAATAGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACTTCTCGCAATATGAGTTGATT-TTGA--AAATA-GAATTGAAATTACCTCAGCGT
**
221419 GCCCCGAGG
62 GCTGC-AGG
* * *
221428 TTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACGTGT
1 CTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAA-ATAGAATTGAAATTACCTCAGCGTG-
221492 CTTG-AGG
63 C-TGCAGG
* *
221499 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTT
221532 ATTGGAAAAC
Statistics
Matches: 150, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
70 4 0.03
71 50 0.33
72 31 0.21
73 4 0.03
74 56 0.37
75 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (69 bp):
CTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAATAGAATTGAAATTACCTCAGCGTGCTG
CAGG
Found at i:221663 original size:160 final size:160
Alignment explanation
Indices: 221399--221782 Score: 687
Period size: 160 Copynumber: 2.4 Consensus size: 160
221389 ATTTAATAGG
* * * *
221399 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
221464 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
221529 TTTATTGGAAAACATGAATTAAAAAGCAGA
131 TTTATTGGAAAACATGAATTAAAAAGCAGA
**
221559 AATTGAAAATACCTTGGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
221624 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
221689 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTATTGGAAAACATGAATTAAAAAGCAGA
*
221719 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGGGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
221783 GAAAAAAACA
Statistics
Matches: 213, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
160 213 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTATTGGAAAACATGAATTAAAAAGCAGA
Found at i:234300 original size:27 final size:27
Alignment explanation
Indices: 234267--234325 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
234257 CATATACGTG
234267 TAATAAT-GATGAAAAT-AATAATAATAA
1 TAATAATAG-TGAAAATAAATAA-AATAA
*
234294 TAATAATAGTGAAAATAAATAAGATAA
1 TAATAATAGTGAAAATAAATAAAATAA
234321 TAATA
1 TAATA
234326 CATATAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
TAATAATAGTGAAAATAAATAAAATAA
Found at i:234413 original size:9 final size:8
Alignment explanation
Indices: 234364--234432 Score: 52
Period size: 9 Copynumber: 8.1 Consensus size: 8
234354 TGAAATGTGT
234364 ATATATATA
1 ATATA-ATA
234373 TATATAATA
1 -ATATAATA
234382 ATAT-AT-
1 ATATAATA
**
234388 ATATGCTA
1 ATATAATA
234396 ATATGAATA
1 ATAT-AATA
234405 ATGATAATA
1 AT-ATAATA
234414 ATACTAATA
1 ATA-TAATA
234423 ATAATAATA
1 AT-ATAATA
234432 A
1 A
234433 AATACGAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
6 4 0.08
7 3 0.06
8 9 0.18
9 26 0.52
10 8 0.16
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:234416 original size:3 final size:3
Alignment explanation
Indices: 234401--234492 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
234391 TGCTAATATG
* * ** *
234401 AAT AAT GAT AAT AAT ACT AAT AAT AAT AAT AA- AAT ACG AAG AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * *
234446 -AT ATAT AAT -AT AAT AAT AAT ATT AA- AAT -AC AAT AATT AAA AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
234489 AAT A
1 AAT A
234493 TTATACATAA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 8 0.12
3 53 0.79
4 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:237443 original size:11 final size:11
Alignment explanation
Indices: 237398--237446 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
237388 AAAATGTTTG
237398 ATTTTCATTATT
1 ATTTT-ATTATT
*
237410 ATTTTATAATT
1 ATTTTATTATT
*
237421 CAATTT-TTATT
1 -ATTTTATTATT
237432 ATTTTATTATT
1 ATTTTATTATT
237443 ATTT
1 ATTT
237447 GATATTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 4 0.13
11 18 0.58
12 9 0.29
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:244179 original size:1 final size:1
Alignment explanation
Indices: 244173--244197 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
244163 ACAGCAGAAG
244173 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
244198 GCAAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:247270 original size:24 final size:24
Alignment explanation
Indices: 247243--247291 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
247233 ATTAATAAAA
* * * *
247243 TTAAAATTAATTATATTTTTATTT
1 TTAAAAATAATAAAATTTTGATTT
247267 TTAAAAATAATAAAATTTTGATTT
1 TTAAAAATAATAAAATTTTGATTT
247291 T
1 T
247292 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTAAAAATAATAAAATTTTGATTT
Found at i:252870 original size:24 final size:25
Alignment explanation
Indices: 252843--252895 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
252833 CTGCTATATC
252843 AAAAGTAAATTAATCTTT-CTATTA
1 AAAAGTAAATTAATCTTTACTATTA
* ** *
252867 AAAATTCCATTAATTTTTACTATTA
1 AAAAGTAAATTAATCTTTACTATTA
252892 AAAA
1 AAAA
252896 CTGATTTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAAGTAAATTAATCTTTACTATTA
Found at i:254369 original size:3 final size:3
Alignment explanation
Indices: 254363--254388 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
254353 ATTCTCTTTG
254363 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
254389 TTCAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:254456 original size:108 final size:102
Alignment explanation
Indices: 254262--255868 Score: 1798
Period size: 108 Copynumber: 15.7 Consensus size: 102
254252 TCTTTTCTTT
** * *
254262 TTCTT-TTCTTCTTTTTCTTCTTTTCGGTTTCATC-CTCAGCCCCTGCATCAATTGCACCGTCAA
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACT----CCCTACATCAATTGCACCATCAA
*
254325 CAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTGTTC
62 CAACAGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
* * *
254366 TTCTTCTTCTTCTTCTTCTTCTTTTCAATTTCATCACTCCCTGCATCAATTGCACTATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCAC---CATC-A-
*
254431 AGCAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTTTGTTCTTC
61 A-CAACAGCAATAGCCTCAATAGCATCCTCATTCTCTTTG---TTC
*
254477 TTCTTCTTCTTCTTTTTCTGCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
* * * *
254542 AGCAATAGCCTCAATAGTATCCTCATTTTCATTGCTC
66 AGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
*
254579 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCATTCCCTACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
*
254644 AGCAATAGACTCAATAGCATCCTCA---------TT-
66 AGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
* *
254671 TTCGT-TGC-TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
*
254734 AGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTC
66 AGCAATAGCCTCAATAGCATCCTCA--TTC--T-CT-TTGTTC
* *
254777 TTCTTCTTCTTCTTTTTCTTATTTTCAATTTCATCACTCCCTGCATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
* * * *
254842 AGCAATAGCCTC-CT--CATTCTC-TT-T-GTTCTTC
66 AGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
*
254873 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCACCACTCCCTACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
* * *
254938 AGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTC
66 AGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
254975 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
*
255040 AGCAATAGACTCAATAGCATCCTCA---------TT-
66 AGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
* * *
255067 TTCGT-TGC-TCTTTTTCTTCTTTTCAATTTCATCACTCCCCACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
*
255130 AGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTC
66 AGCAATAGCCTCAATAGCATCCTCA--TTC--T-CT-TTGTTC
*
255173 TTCTTCTTCTTCTTTTTCTTATTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
*
255238 AGCAATAGCCTCAATAGCCTCCTCATTCTCTTTGTTCTTCTTC
66 AGCAATAGCCTCAATAGCATCCTCATTCTCTTTG------TTC
* *
255281 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTGCATCAATTGCATTATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGC---A-C--CATC
* * * * *
255346 AGCAACAGCAATATCCTCAATAGCATCCTCATTTTCATTGCTC
60 AACAACAGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
* * *
255389 TTCTTCTTTTTCTTTTTATTCTTTTCAATTTCATTACTCCCTACATCAATTGCACCATCCACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCAT---C-A-
* *
255454 AGCAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTG---
61 A-CAACAGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
* *
255494 --C-TCTTCTTCTTTTTCTTATTTTCATTTTCATCACTCCCTACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
* * *
255556 AGCAATAGCCTCAATAGCATTCTCATTTTCATTG---
66 AGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
255590 --C-TCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
* *
255652 AGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTCTTC
66 AGCAATAGCCTCAATAGCATCCTCATTCTC-TT--TGTTC
* *
255692 TTCTTCTTCTTCTTTTTCTTCTTTTCAAATTCATCACTCCCTACATCAATTGCACTATCAACAAC
1 TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCAC---CATC-A-
* * *
255757 AGCAACAGCAATAGCCTCAATGGCAT-CTACATTCTCATTGCTC
61 A-CAACAGCAATAGCCTCAATAGCATCCT-CATTCTCTTTGTTC
* **
255800 TTCTTCTTCTTATTTTTCTT-TGTTTCAATTTCATCAGC-CCCTATGTC-ATTAGCACCATCAAC
1 TTCTTCTTCTTCTTTTTCTTCT-TTTCAATTTCATCA-CTCCCTACATCAATT-GCACCATCAAC
*
255862 AGCAGCA
63 AACAGCA
255869 GCAACAGCCT
Statistics
Matches: 1322, Mismatches: 91, Indels: 182
0.83 0.06 0.11
Matches are distributed among these distances:
90 156 0.12
91 4 0.00
92 8 0.01
93 2 0.00
96 206 0.16
97 3 0.00
98 1 0.00
99 9 0.01
100 2 0.00
101 1 0.00
102 259 0.20
103 4 0.00
104 9 0.01
105 127 0.10
106 16 0.01
107 11 0.01
108 374 0.28
109 2 0.00
110 4 0.00
111 85 0.06
112 1 0.00
114 38 0.03
ACGTcount: A:0.23, C:0.31, G:0.06, T:0.40
Consensus pattern (102 bp):
TTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAAC
AGCAATAGCCTCAATAGCATCCTCATTCTCTTTGTTC
Found at i:254683 original size:90 final size:90
Alignment explanation
Indices: 254589--254781 Score: 350
Period size: 90 Copynumber: 2.1 Consensus size: 90
254579 TTCTTCTTCT
*
254589 TCTTTTTCTTCTTTTCAATTTCATCATTCCCTACATCAATTGCACCATCAACAACAGCAATAGAC
1 TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGAC
*
254654 TCAATAGCATCCTCATTTTCGTTGC
66 TCAATAGCATCCTCATTTTCATTGC
*
254679 TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGCC
1 TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGAC
254744 TCAATAGCATCCTCATTTTCATTGC
66 TCAATAGCATCCTCATTTTCATTGC
*
254769 TCTTCTTCTTCTT
1 TCTTTTTCTTCTT
254782 CTTCTTCTTT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 99 1.00
ACGTcount: A:0.25, C:0.30, G:0.06, T:0.39
Consensus pattern (90 bp):
TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGAC
TCAATAGCATCCTCATTTTCATTGC
Found at i:255018 original size:396 final size:402
Alignment explanation
Indices: 254271--255868 Score: 2167
Period size: 396 Copynumber: 3.9 Consensus size: 402
254261 TTTCTTTTCT
** * *
254271 TCTTTTTCTTCTTTTCGGTTTCATC-CTCAGCCCCTGCATCAATTGCACCGTCAACAACAGCAAT
1 TCTTTTTCTTCTTTTCAATTTCATCACT----CCCTACATCAATTGCACCATCAACAACAGCAAT
* * * *
254335 AGCCTCAATAGCCTCCTCA--TTC--T-CT-TTGTTCTTCTTCTTCTTCTTCTTCTTCTTTTCAA
62 AGCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTCTTCTTTTTCTTATTTTCAA
* *
254394 TTTCATCACTCCCTGCATCAATTGCACTATCAACAACAGCAACAGCAATAGCCTCAATAGCCTCC
127 TTTCATCACTCCCTACATCAATTGCAC---CATC-A-A-CAACAGC-A-AG-C-CAATAGCCTCC
*
254459 TCATTCTCTTTGTTCTTCTTCTTCTTCTTCTTTTTCTGCTTTTCAATTTCATCACTCCCTACATC
182 TCATTCTCTTTGTTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATC
* *
254524 AATTGCAC-CATCAACAACAGCAATAGCCTCAATAGTATCCTCATTTTCATTGCTCTTCTTCTTC
247 AATTGCACACAACAACAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTC
*
254588 TTCTTTTTCTTCTTTTCAATTTCATCATTCCCTACATCAATTGCACCATCAACAACAGCAATAGA
312 TTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGA
254653 CTCAATAGCATCCTCATTTTCGTTGC
377 CTCAATAGCATCCTCATTTTCGTTGC
254679 TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGCC
1 TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGCC
254744 TCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTCTTCTTTTTCTTATTTTCAATTTC
66 TCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTCTTCTTTTTCTTATTTTCAATTTC
*
254809 ATCACTCCCTGCATCAATTGCACCATCAAC-A-A-C-AG-CAATAGCCTCCTCATTCTCTTTGTT
131 ATCACTCCCTACATCAATTGCACCATCAACAACAGCAAGCCAATAGCCTCCTCATTCTCTTTGTT
* *
254869 CTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCACCACTCCCTACATCAATTGCAC-CATCA
196 CTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACACAACA
254933 ACAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTTTTCTTCTT
261 ACAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTTTTCTTCTT
254998 TTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGACTCAATAGCATCCT
326 TTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGACTCAATAGCATCCT
255063 CATTTTCGTTGC
391 CATTTTCGTTGC
*
255075 TCTTTTTCTTCTTTTCAATTTCATCACTCCCCACATCAATTGCACCATCAACAACAGCAATAGCC
1 TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGCC
255140 TCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTCTTCTTTTTCTTATTTTCAATTTC
66 TCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTCTTCTTTTTCTTATTTTCAATTTC
255205 ATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGCCTCAATAGCCTCCTCATTCTCTT
131 ATCACTCCCTACATCAATTGCACCATCAACAACAGC-A-AG-C-CAATAGCCTCCTCATTCTCTT
*
255270 TGTTCTTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTGCATCAATTGCA
192 TG---TTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGC-
* * *
255335 TTATCAACAACAGCAACAGCAATATCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTTTT
253 --A-C-ACAACAACAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTT
* *
255400 CTTTTTATTCTTTTCAATTTCATTACTCCCTACATCAATTGCACCATCCACAACAGCAACAGCAA
314 CTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCAT---C-A-A-CAACAGCAA
* *
255465 TAGCCTCAATAGCATCCTCATTTTCATTGCTCTTC
373 TAGACTCAATAGCATCCTCATTTTC---G-T-TGC
* *
255500 TTCTTTTTCTTATTTTCATTTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGC
1 -TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGC
*
255565 CTCAATAGCATTCTCATTTTCATTG--C-TCTTCTTC-T-TT-TTC---TTC---TTTTCAATTT
65 CTCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTCTTCTTTTTCTTATTTTCAATTT
* * *
255618 CATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGCCTCAATAGCATCCTCATTTTCA
130 CATCACTCCCTACATCAATTGCACCATCAACAACAGC-A-AG-C-CAATAGCCTCCTCATTCTCT
* *
255683 TTGCTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAAATTCATCACTCCCTACATCAATTGCACT
191 TTGTTCTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCAC-
* * *
255748 ATCAACAACAGCAACAGCAATAGCCTCAATGGCAT-CTACATTCTCATTGCTCTTCTTCTTCTTA
255 A-CAAC-A-A-CAACAGCAATAGCCTCAATAGCATCCT-CATTTTCATTGCTCTTCTTCTTCTTC
** *
255812 TTTTTCTT-TGTTTCAATTTCATCAGC-CCCTATGTC-ATTAGCACCATCAACAGCAGCA
315 TTTTTCTTCT-TTTCAATTTCATCA-CTCCCTACATCAATT-GCACCATCAACAACAGCA
255869 GCAACAGCCT
Statistics
Matches: 1098, Mismatches: 47, Indels: 93
0.89 0.04 0.08
Matches are distributed among these distances:
396 385 0.35
397 1 0.00
398 1 0.00
399 3 0.00
402 3 0.00
403 1 0.00
404 1 0.00
405 80 0.07
406 2 0.00
407 7 0.01
408 89 0.08
409 4 0.00
410 8 0.01
411 194 0.18
412 2 0.00
414 174 0.16
417 4 0.00
418 1 0.00
419 1 0.00
420 36 0.03
421 2 0.00
422 1 0.00
423 9 0.01
424 2 0.00
425 2 0.00
426 85 0.08
ACGTcount: A:0.23, C:0.31, G:0.06, T:0.40
Consensus pattern (402 bp):
TCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGCC
TCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTCTTCTTTTTCTTATTTTCAATTTC
ATCACTCCCTACATCAATTGCACCATCAACAACAGCAAGCCAATAGCCTCCTCATTCTCTTTGTT
CTTCTTCTTCTTCTTCTTTTTCTTCTTTTCAATTTCATCACTCCCTACATCAATTGCACACAACA
ACAACAGCAATAGCCTCAATAGCATCCTCATTTTCATTGCTCTTCTTCTTCTTCTTTTTCTTCTT
TTCAATTTCATCACTCCCTACATCAATTGCACCATCAACAACAGCAATAGACTCAATAGCATCCT
CATTTTCGTTGC
Found at i:255278 original size:3 final size:3
Alignment explanation
Indices: 255272--255303 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
255262 ATTCTCTTTG
*
255272 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
255304 TTCAATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:256004 original size:6 final size:6
Alignment explanation
Indices: 255998--256030 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
255988 CTCTTTATTC
*
255998 TTCTTC TTCTTT TTCTTT TTCTTT TTCTTT TTC
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTC
256031 ACTAGAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:260313 original size:235 final size:238
Alignment explanation
Indices: 259896--260478 Score: 760
Period size: 235 Copynumber: 2.4 Consensus size: 238
259886 ACCTAACTTC
* * * * *
259896 ATTCATATTTTAATTTTACATCAATCAACAAATTCAATTCAATTCACTTTCAGCAACTTTTCATT
1 ATTCATATTTTAATCTTA-ATCAATCAATAAATTC-A---AATTCAATTTCCGCAACTTTTCCTT
* * * * * *
259961 CACTTTCTCACCAACCAAAAAACAGATCAAACCAAAAAAGAAAAACAGATGAAATTTTGACTTTG
61 CACTTTATCACCAACCAAACAACAGATCAAACCAAAAAA-AAAAACAAATAAAATTTAGACTTTA
* * *
260026 CAAAAACATGATCATGCAAGCTTAAGGATCTTTAAGATCAAATTCCCGTTTGTTGACCGAGAAAA
125 CAAAAACATAATCATGCAAGCTTAAAGACCTTTAAGATCAAATTCCCGTTTGTTGACCGAGAAAA
* * * * * *
260091 CGGATGACAAGAAGTATTTACTATTCATACATGTAAGCCTAACATCGTA
190 CGGATGAAAAGAAGTATTTACCACTCAGACATGTAAACCTAACATCATA
* *
260140 ATTCATATTTTAATCTT-A-C-ATCAATAAATTCAAATTCAAATTCCGCAACTTTCCCTTCACTT
1 ATTCATATTTTAATCTTAATCAATCAATAAATTCAAATTCAATTTCCGCAACTTTTCCTTCACTT
* * *
260202 TTTCACCAACCAAACAACAGATCAAACCAAAAATAAAAACAAATAAAATTTAGACTTTACAAATA
66 TATCACCAACCAAACAACAGATCAAACCAAAAAAAAAAACAAATAAAATTTAGACTTTACAAAAA
* * * *
260267 CATAATCATGTAAGCTTAAAGACCTTTAAGATCAAATTCCCGTTTGTTTATCGAGAAAACTGATG
131 CATAATCATGCAAGCTTAAAGACCTTTAAGATCAAATTCCCGTTTGTTGACCGAGAAAACGGATG
*
260332 AAAAGAAGTTTTTACCACTCAGACATGTAAACCTAACATCATA
196 AAAAGAAGTATTTACCACTCAGACATGTAAACCTAACATCATA
* * *
260375 ATTTATATTTTAATTTTACATCAATCAATAAATTCAAATTCATTTTCCGCAACTTTTCCTTCACT
1 ATTCATATTTTAATCTTA-ATCAATCAATAAATTCAAATTCAATTTCCGCAACTTTTCCTTCACT
* *
260440 TTATCACCAACC-AACAACAGATCAAGCAAAAAAAAAAAA
65 TTATCACCAACCAAACAACAGATCAAACCAAAAAAAAAAA
260479 GAAAAAAGAA
Statistics
Matches: 297, Mismatches: 38, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
235 135 0.45
236 56 0.19
237 1 0.00
238 25 0.08
239 51 0.17
240 11 0.04
241 1 0.00
242 1 0.00
244 16 0.05
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (238 bp):
ATTCATATTTTAATCTTAATCAATCAATAAATTCAAATTCAATTTCCGCAACTTTTCCTTCACTT
TATCACCAACCAAACAACAGATCAAACCAAAAAAAAAAACAAATAAAATTTAGACTTTACAAAAA
CATAATCATGCAAGCTTAAAGACCTTTAAGATCAAATTCCCGTTTGTTGACCGAGAAAACGGATG
AAAAGAAGTATTTACCACTCAGACATGTAAACCTAACATCATA
Found at i:260485 original size:13 final size:13
Alignment explanation
Indices: 260467--260500 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
260457 CAGATCAAGC
260467 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
260480 AAAAAAGAAAAAG
1 AAAAAAAAAAAAG
260493 AAAAAAAA
1 AAAAAAAA
260501 GGAAAACAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:260506 original size:7 final size:7
Alignment explanation
Indices: 260467--260498 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
260457 CAGATCAAGC
260467 AAAAAA-
1 AAAAAAG
260473 AAAAAAG
1 AAAAAAG
260480 AAAAAAG
1 AAAAAAG
260487 -AAAAAG
1 AAAAAAG
260493 AAAAAA
1 AAAAAA
260499 AAGGAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:264570 original size:3 final size:3
Alignment explanation
Indices: 264564--264590 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
264554 AAAAAAAAAA
264564 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
264591 TTCGGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:265730 original size:63 final size:62
Alignment explanation
Indices: 265638--265763 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 62
265628 ATCCTTGGTT
* * *
265638 TATTCGAAAGATAAAAAAGAAGAGGGAAAGGA-GGTTAATGGGCTAAAACCACAAATAGGAAA
1 TATTCGAAAGATAAAAAAAAAGAGCGAAA-GATGGTTAATGGGCTAAAAACACAAATAGGAAA
*
265700 TATTCGAAAGATTAAAAAAAAAGAGCGAAAGATGGTTAATGGGCTAAAAACACTAATAGGAAA
1 TATTCGAAAGA-TAAAAAAAAAGAGCGAAAGATGGTTAATGGGCTAAAAACACAAATAGGAAA
265763 T
1 T
265764 GGGCTAAAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
62 13 0.22
63 45 0.78
ACGTcount: A:0.52, C:0.08, G:0.23, T:0.17
Consensus pattern (62 bp):
TATTCGAAAGATAAAAAAAAAGAGCGAAAGATGGTTAATGGGCTAAAAACACAAATAGGAAA
Found at i:271369 original size:25 final size:25
Alignment explanation
Indices: 271341--271393 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
271331 AATCTAAACC
271341 CAAAACATAATAATTCTTATTAATT
1 CAAAACATAATAATTCTTATTAATT
271366 CAAAACATAATAATTCTTATTAATT
1 CAAAACATAATAATTCTTATTAATT
271391 CAA
1 CAA
271394 CTTTGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (25 bp):
CAAAACATAATAATTCTTATTAATT
Found at i:272066 original size:18 final size:18
Alignment explanation
Indices: 272043--272081 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
272033 TTGATATGAG
272043 AAAATATATAATAAAAAT
1 AAAATATATAATAAAAAT
* *
272061 AAAATATATATTTAAAAT
1 AAAATATATAATAAAAAT
272079 AAA
1 AAA
272082 GGATAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATATAATAAAAAT
Found at i:272970 original size:3 final size:3
Alignment explanation
Indices: 272962--273007 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
272952 ATATGTTAAA
272962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
273008 TATTTTGTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:274763 original size:3 final size:3
Alignment explanation
Indices: 274755--274783 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
274745 AAGGGTCTCT
274755 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
274784 TTTCCTCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:282781 original size:2 final size:2
Alignment explanation
Indices: 282774--282801 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
282764 TGAAGGAAAC
282774 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
282802 AAACACAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:287865 original size:22 final size:22
Alignment explanation
Indices: 287823--287866 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
287813 TTCAATATTT
* *
287823 AATTTGGTACTTGACTATTTTC
1 AATTTGATACATGACTATTTTC
287845 AATTTGATACATGAACT-TTTTC
1 AATTTGATACATG-ACTATTTTC
287867 TTTTTGTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (22 bp):
AATTTGATACATGACTATTTTC
Found at i:288315 original size:9 final size:9
Alignment explanation
Indices: 288301--288397 Score: 85
Period size: 9 Copynumber: 10.8 Consensus size: 9
288291 ATATTTCTCA
288301 TAAAAATAT
1 TAAAAATAT
288310 TAAAAATGAT
1 TAAAAAT-AT
288320 ATAAAAATAT
1 -TAAAAATAT
*
288330 AAAAAATTAT
1 TAAAAA-TAT
*
288340 TAAAAAAAT
1 TAAAAATAT
288349 TATAAAA-AT
1 TA-AAAATAT
*
288358 AAAAAATAT
1 TAAAAATAT
288367 T--AAATAT
1 TAAAAATAT
*
288374 TAAAATTA-
1 TAAAAATAT
288382 TAAAAATAT
1 TAAAAATAT
*
288391 AAAAAAT
1 TAAAAAT
288398 CTAATAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
7 7 0.10
8 11 0.15
9 31 0.43
10 16 0.22
11 7 0.10
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (9 bp):
TAAAAATAT
Found at i:288325 original size:20 final size:19
Alignment explanation
Indices: 288300--288416 Score: 92
Period size: 20 Copynumber: 6.5 Consensus size: 19
288290 AATATTTCTC
288300 ATAAAAATATTAAAAATGAT
1 ATAAAAATATTAAAAAT-AT
*
288320 ATAAAAATATAAAAAAT-T
1 ATAAAAATATTAAAAATAT
*
288338 ATTAAAAAAATTATAAAA-AT
1 A-TAAAAATATTA-AAAATAT
288358 A-AAAAATATT--AAATAT
1 ATAAAAATATTAAAAATAT
*
288374 -TAAAATTA-TAAAAATAT
1 ATAAAAATATTAAAAATAT
*
288391 A-AAAAAT-CTAATAAAT-T
1 ATAAAAATATTAA-AAATAT
288408 ATAAAAATA
1 ATAAAAATA
288417 ATTATAAATT
Statistics
Matches: 79, Mismatches: 6, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
15 4 0.05
16 8 0.10
17 16 0.20
18 20 0.25
19 9 0.11
20 22 0.28
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAAAAATATTAAAAATAT
Found at i:288343 original size:30 final size:29
Alignment explanation
Indices: 288302--288453 Score: 100
Period size: 30 Copynumber: 5.1 Consensus size: 29
288292 TATTTCTCAT
288302 AAAAA-TATTAAAAATGATATAAAAATATA
1 AAAAATTATTAAAAAT-ATATAAAAATATA
*
288331 AAAAATTATTAAAAAAATTATAAAAATA-A
1 AAAAATTATTAAAAATA-TATAAAAATATA
*
288360 AAAATATTAAATATTAAAAT-TATAAAAATATA
1 AAAA-ATT--AT-TAAAAATATATAAAAATATA
* *
288392 AAAAATCTA--ATAAAT-TATAAAAATAATT
1 AAAAAT-TATTAAAAATATATAAAAAT-ATA
* * * *
288420 ATAAATTAATAAAACTTATATAAAACATTTA
1 AAAAATTATTAAAA-ATATATAAAA-ATATA
288451 AAA
1 AAA
288454 TTAAAAAACG
Statistics
Matches: 97, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
27 15 0.15
28 7 0.07
29 14 0.14
30 24 0.25
31 22 0.23
32 10 0.10
33 5 0.05
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (29 bp):
AAAAATTATTAAAAATATATAAAAATATA
Found at i:288345 original size:12 final size:11
Alignment explanation
Indices: 288311--288356 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
288301 TAAAAATATT
* *
288311 AAAAATGATAT
1 AAAAATTATAA
288322 AAAAA-TAT-A
1 AAAAATTATAA
288331 AAAAATTATTAA
1 AAAAATTA-TAA
288343 AAAAATTATAA
1 AAAAATTATAA
288354 AAA
1 AAA
288357 TAAAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 5 0.17
10 4 0.13
11 12 0.40
12 9 0.30
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:288363 original size:16 final size:17
Alignment explanation
Indices: 288300--288415 Score: 77
Period size: 17 Copynumber: 6.9 Consensus size: 17
288290 AATATTTCTC
288300 ATAAAAATATTAAAAATGAT
1 ATAAAAATA-TAAAAAT--T
288320 ATAAAAATATAAAAAATT
1 ATAAAAATAT-AAAAATT
*
288338 AT-----TAAAAAAATT
1 ATAAAAATATAAAAATT
288350 ATAAAAATA-AAAAA-T
1 ATAAAAATATAAAAATT
* *
288365 AT-TAAATATTAAAATT
1 ATAAAAATATAAAAATT
*
288381 ATAAAAATATAAAAAAT
1 ATAAAAATATAAAAATT
*
288398 CTAATAAATTATAAAAAT
1 ATAA-AAA-TATAAAAAT
288416 AATTATAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
12 9 0.12
13 2 0.03
14 5 0.06
15 7 0.09
16 8 0.10
17 16 0.21
18 6 0.08
19 9 0.12
20 15 0.19
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (17 bp):
ATAAAAATATAAAAATT
Found at i:288415 original size:9 final size:9
Alignment explanation
Indices: 288300--288444 Score: 72
Period size: 9 Copynumber: 15.8 Consensus size: 9
288290 AATATTTCTC
288300 ATAAAAA-T
1 ATAAAAATT
288308 ATTAAAAATGAT
1 A-TAAAAAT--T
288320 ATAAAAA-T
1 ATAAAAATT
288328 ATAAAAAATT
1 AT-AAAAATT
288338 ATTAAAAAAATT
1 A-T--AAAAATT
288350 ATAAAAA-T
1 ATAAAAATT
288358 A-AAAAA-T
1 ATAAAAATT
*
288365 AT-TAAA-T
1 ATAAAAATT
*
288372 ATTAAAATT
1 ATAAAAATT
288381 ATAAAAA-T
1 ATAAAAATT
*
288389 ATAAAAAAT
1 ATAAAAATT
*
288398 CTAATAAATT
1 ATAA-AAATT
*
288408 ATAAAAATA
1 ATAAAAATT
*
288417 ATTATAAATT
1 A-TAAAAATT
*
288427 AATAAAACTT
1 -ATAAAAATT
288437 ATATAAAA
1 ATA-AAAA
288445 CATTTAAAAT
Statistics
Matches: 109, Mismatches: 12, Indels: 30
0.72 0.08 0.20
Matches are distributed among these distances:
7 13 0.12
8 17 0.16
9 35 0.32
10 24 0.22
11 9 0.08
12 11 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:288443 original size:19 final size:19
Alignment explanation
Indices: 288300--288433 Score: 58
Period size: 20 Copynumber: 7.3 Consensus size: 19
288290 AATATTTCTC
*
288300 ATAAAAAT-ATTAAAAATGAT
1 ATAAAAATAATTATAAAT--T
* *
288320 ATAAAAAT-ATAAAAAATT
1 ATAAAAATAATTATAAATT
*
288338 ATTAAAAA-AATTATAAA-A
1 A-TAAAAATAATTATAAATT
288356 AT-AAAA-AA-TATTAAA-T
1 ATAAAAATAATTA-TAAATT
* * *
288372 ATTAAAATTA-TA-AAAAT
1 ATAAAAATAATTATAAATT
288389 AT-AAAA-AATCTAATAAATT
1 ATAAAAATAAT-T-ATAAATT
288408 ATAAAAATAATTATAAATT
1 ATAAAAATAATTATAAATT
288427 AATAAAA
1 -ATAAAA
288434 CTTATATAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 26
0.73 0.06 0.20
Matches are distributed among these distances:
15 3 0.03
16 19 0.20
17 9 0.10
18 7 0.08
19 25 0.27
20 27 0.29
21 3 0.03
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.31
Consensus pattern (19 bp):
ATAAAAATAATTATAAATT
Found at i:288482 original size:28 final size:29
Alignment explanation
Indices: 288418--288489 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 29
288408 ATAAAAATAA
*
288418 TTATAAATTAATAAAACTTATATAAAACAT
1 TTATAAATTAA-AAAACGTATATAAAACAT
*
288448 TTA-AAATTAAAAAACGTAT-TAAAA-TT
1 TTATAAATTAAAAAACGTATATAAAACAT
*
288474 CTTATAAATTACAAAA
1 -TTATAAATTAAAAAA
288490 TATAGGGACT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 1 0.03
27 8 0.22
28 18 0.49
29 7 0.19
30 3 0.08
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (29 bp):
TTATAAATTAAAAAACGTATATAAAACAT
Found at i:292145 original size:130 final size:130
Alignment explanation
Indices: 291912--292166 Score: 456
Period size: 130 Copynumber: 2.0 Consensus size: 130
291902 CATCTCTAGA
*
291912 TTGTAAAGGGGAGACAACCAAGCAAATCTAAGTTCAGATTATTGTTAGTATCCTTTGAAATTGTT
1 TTGTAAAGGGGAGACAACCAAGCAAATCTAAGTTCAGATTATTGTTAGTATCCTTTGAAATTGCT
*
291977 AACATTTACGTTTATCGAAACTAGTTATCACCGACACATAAAATGCGTATCAGTGATATTGTTAG
66 AACATTTACGTTCATCGAAACTAGTTATCACCGACACATAAAATGCGTATCAGTGATATTGTTAG
*
292042 TTGTAAAGGGGAGACAACCAAGCAAATCTAAGTTCAGATTATTGTTAGTGTCCTTTGAAATTGCT
1 TTGTAAAGGGGAGACAACCAAGCAAATCTAAGTTCAGATTATTGTTAGTATCCTTTGAAATTGCT
* * *
292107 AACATTTATGTTCATCGAAACTAGTTATCACCTACACATGAAATGCGTATCAGTGATATT
66 AACATTTACGTTCATCGAAACTAGTTATCACCGACACATAAAATGCGTATCAGTGATATT
292167 ACATCTGAAA
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 119 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (130 bp):
TTGTAAAGGGGAGACAACCAAGCAAATCTAAGTTCAGATTATTGTTAGTATCCTTTGAAATTGCT
AACATTTACGTTCATCGAAACTAGTTATCACCGACACATAAAATGCGTATCAGTGATATTGTTAG
Found at i:294617 original size:2 final size:2
Alignment explanation
Indices: 294612--294662 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
294602 TTTAAATAGC
294612 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
294654 AG AG AG AG A
1 AG AG AG AG A
294663 TACCGGCGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:299372 original size:4 final size:4
Alignment explanation
Indices: 299365--299389 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
299355 ATTAATTGAA
299365 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
299390 CCTTGCCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:299752 original size:3 final size:3
Alignment explanation
Indices: 299744--299793 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
299734 AGGAGACTCA
* * *
299744 GAT GAT GAT GAT GAT GAT AAT GAT GAT GAT GAT GGT GAT GAT GGT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
299792 GA
1 GA
299794 AAGTGAGGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:299997 original size:2 final size:2
Alignment explanation
Indices: 299952--299977 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
299942 ATATTCTACT
299952 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
299978 CACACATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:328388 original size:28 final size:29
Alignment explanation
Indices: 328357--328419 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
328347 ATTTGACTTG
*
328357 AATTTT-AAAATAACAAATAAAGAGACTA
1 AATTTTGAAAATAAAAAATAAAGAGACTA
* *
328385 AATTCTTGAAAATAAAAAATAGAGAGATTA
1 AATT-TTGAAAATAAAAAATAAAGAGACTA
328415 AATTT
1 AATTT
328420 CAAATATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 3 0.10
30 23 0.77
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (29 bp):
AATTTTGAAAATAAAAAATAAAGAGACTA
Found at i:330495 original size:13 final size:13
Alignment explanation
Indices: 330477--330516 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
330467 TAACACTAAA
*
330477 ATATATACATAAT
1 ATATATATATAAT
330490 ATATATATATACAT
1 ATATATATATA-AT
330504 AATATATATATAA
1 -ATATATATATAA
330517 ATGAACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 11 0.46
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:330499 original size:17 final size:17
Alignment explanation
Indices: 330477--330515 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
330467 TAACACTAAA
330477 ATATATACATAATATAT
1 ATATATACATAATATAT
330494 ATATATACATAATATAT
1 ATATATACATAATATAT
330511 ATATA
1 ATATA
330516 AATGAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATACATAATATAT
Found at i:330735 original size:22 final size:21
Alignment explanation
Indices: 330679--330779 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 21
330669 ATATACGAAA
330679 ATAATACTATATATAA-AAAAT
1 ATAATACTA-ATATAATAAAAT
**
330700 ATATATACGCATATAATAAAAT
1 ATA-ATACTAATATAATAAAAT
330722 ATAAGTACTAATATTAATAAAAAT
1 ATAA-TACTAATA-TAAT-AAAAT
** *
330746 ATAATAGGAATAAAAT-AAAT
1 ATAATACTAATATAATAAAAT
* *
330766 GTAATAATAATATA
1 ATAATACTAATATA
330780 CGCAATATGA
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
20 14 0.22
21 10 0.16
22 21 0.33
23 10 0.16
24 9 0.14
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAATACTAATATAATAAAAT
Found at i:331065 original size:23 final size:22
Alignment explanation
Indices: 331030--331072 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
331020 TATATATAAA
*
331030 TAATAATGATATTAGAAATACC
1 TAATAATAATATTAGAAATACC
331052 TAATATATAATATTAGAAATA
1 TAATA-ATAATATTAGAAATA
331073 TATACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (22 bp):
TAATAATAATATTAGAAATACC
Found at i:331083 original size:11 final size:11
Alignment explanation
Indices: 331069--331137 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
331059 TAATATTAGA
331069 AATATATACAT
1 AATATATACAT
*
331080 AATATATATA-
1 AATATATACAT
*
331090 ATATATATATAT
1 A-ATATATACAT
* * *
331102 AATGTAGTATTAA
1 AATATA-TA-CAT
331115 AATATATACAT
1 AATATATACAT
331126 AATATATACAT
1 AATATATACAT
331137 A
1 A
331138 TTAAAAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 1 0.02
11 35 0.73
12 5 0.10
13 7 0.15
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (11 bp):
AATATATACAT
Found at i:331083 original size:20 final size:20
Alignment explanation
Indices: 331038--331104 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 20
331028 AATAATAATG
331038 ATATTAGAAATACCTAATATATA
1 ATATTAGAAATA--T-ATATATA
*
331061 ATATTAGAAATATATACATA
1 ATATTAGAAATATATATATA
*
331081 ATATATATAATATATATATATA
1 ATAT-TAGAA-ATATATATATA
331103 AT
1 AT
331105 GTAGTATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.26
21 5 0.13
22 12 0.31
23 12 0.31
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (20 bp):
ATATTAGAAATATATATATA
Found at i:331161 original size:18 final size:20
Alignment explanation
Indices: 331124--331162 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
331114 AAATATATAC
331124 ATAATATATACATATTAAAA
1 ATAATATATACATATTAAAA
*
331144 ATAATA-ATA-ATGTTAAAA
1 ATAATATATACATATTAAAA
331162 A
1 A
331163 CAACTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:331206 original size:15 final size:15
Alignment explanation
Indices: 331183--331227 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
331173 TAATACTTCA
*
331183 TAAATATATATATAC
1 TAAAAATATATATAC
* *
331198 TAAAAATATACATAA
1 TAAAAATATATATAC
*
331213 TAATAATATATATAC
1 TAAAAATATATATAC
331228 AATAGTAAGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAATATATATAC
Found at i:341906 original size:17 final size:17
Alignment explanation
Indices: 341881--341913 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
341871 GGGCGATGCT
*
341881 GCAGTGGGCAGGTGGTG
1 GCAGAGGGCAGGTGGTG
341898 GCAGAGGGCAGGTGGT
1 GCAGAGGGCAGGTGGT
341914 CGAATGGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.58, T:0.15
Consensus pattern (17 bp):
GCAGAGGGCAGGTGGTG
Found at i:349868 original size:47 final size:47
Alignment explanation
Indices: 349759--349869 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
349749 CCGGGATAAG
* * * *
349759 CACATAGTGCTTCATCAGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
349806 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
349853 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
349870 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:354484 original size:40 final size:40
Alignment explanation
Indices: 354428--354547 Score: 204
Period size: 40 Copynumber: 3.0 Consensus size: 40
354418 TGCTAAACTA
* *
354428 TAAATATCTATCTTCTCTGTAACTCTTCTCATTCATCAAT
1 TAAATATCCATTTTCTCTGTAACTCTTCTCATTCATCAAT
354468 TAAATATCCATTTTCTCTGTAACTCTTCTCATTCATCAAT
1 TAAATATCCATTTTCTCTGTAACTCTTCTCATTCATCAAT
* *
354508 TAAATATCCAATTTCTCTGTAACTCTTCTTATTCATCAAT
1 TAAATATCCATTTTCTCTGTAACTCTTCTCATTCATCAAT
354548 CACCTTCTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.28, C:0.24, G:0.03, T:0.45
Consensus pattern (40 bp):
TAAATATCCATTTTCTCTGTAACTCTTCTCATTCATCAAT
Found at i:361032 original size:25 final size:26
Alignment explanation
Indices: 360994--361056 Score: 96
Period size: 25 Copynumber: 2.5 Consensus size: 26
360984 AACAATATGG
360994 ACCATA-TATAGATTAATATCTGTGC
1 ACCATATTATAGATTAATATCTGTGC
361019 ACCATATTAT-GATTAATATCTGTGC
1 ACCATATTATAGATTAATATCTGTGC
*
361044 AGCATA-TATAGAT
1 ACCATATTATAGAT
361057 ACACACATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
24 3 0.09
25 29 0.83
26 3 0.09
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (26 bp):
ACCATATTATAGATTAATATCTGTGC
Found at i:365253 original size:25 final size:25
Alignment explanation
Indices: 365219--365268 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
365209 CAACACGTCA
365219 GATATTATCTCCGGTTAGAGTTTTG
1 GATATTATCTCCGGTTAGAGTTTTG
365244 GATATTATCTCCGGTTAGAGTTTTG
1 GATATTATCTCCGGTTAGAGTTTTG
365269 TCTCATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (25 bp):
GATATTATCTCCGGTTAGAGTTTTG
Found at i:378969 original size:3 final size:3
Alignment explanation
Indices: 378924--378951 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
378914 TTTCCAACCA
378924 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
378952 TTATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:387422 original size:6 final size:6
Alignment explanation
Indices: 387413--387440 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
387403 CGTTCATGTT
387413 CAATAC CAATAC CAATAC CAATAC CAAT
1 CAATAC CAATAC CAATAC CAATAC CAAT
387441 CACATTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (6 bp):
CAATAC
Found at i:387613 original size:29 final size:28
Alignment explanation
Indices: 387567--387629 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
387557 AAAAAAAATT
387567 TAATTTTTTGTAACTTT-ATAATATTTTCA
1 TAATTTTTTGTAACTTTAAT-ATATTTT-A
* **
387596 TAATTTTTTTTATTTTTAATATATTTTA
1 TAATTTTTTGTAACTTTAATATATTTTA
387624 -AATTTT
1 TAATTTT
387630 AAAAAATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 6 0.20
28 1 0.03
29 21 0.70
30 2 0.07
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (28 bp):
TAATTTTTTGTAACTTTAATATATTTTA
Found at i:395257 original size:22 final size:23
Alignment explanation
Indices: 395215--395262 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
395205 TATATATATC
*
395215 ATATTTTATATTTTTATATAA-A
1 ATATTTTATATATTTATATAAGA
395237 ATATTTTATAATATTT-TATAAGA
1 ATATTTTAT-ATATTTATATAAGA
395260 ATA
1 ATA
395263 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATTTTATATATTTATATAAGA
Found at i:395965 original size:13 final size:13
Alignment explanation
Indices: 395947--395978 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
395937 ATTGTCGCAT
395947 TCTCTCTCGAAGG
1 TCTCTCTCGAAGG
395960 TCTCTCTCGAAGG
1 TCTCTCTCGAAGG
395973 TCTCTC
1 TCTCTC
395979 CAGAACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.34, G:0.19, T:0.34
Consensus pattern (13 bp):
TCTCTCTCGAAGG
Found at i:399687 original size:44 final size:45
Alignment explanation
Indices: 399597--399725 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
399587 GACAGAACGA
*
399597 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
399643 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
399687 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
399726 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Done.